BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0001.1695.p (311 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311165|ref|YP_003775257.1| transcription regulator protein... 597 e-172 gi|300312614|ref|YP_003776706.1| LysR family transcription regul... 158 5e-40 gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 85 7e-18 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 83 2e-17 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 75 8e-15 >gi|300311165|ref|YP_003775257.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 597 bits (1539), Expect = e-172, Method: Compositional matrix adjust. Identities = 294/311 (94%), Positives = 301/311 (96%) Query: 1 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD 60 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD Sbjct: 1 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD 60 Query: 61 GSKALVYAERMVKLMREMKDDMSDREVFAGVIRIGVIESIVHSWFPDFLGRLHQAFPRLQ 120 GSKALV+AERMVKLMREMK+DMSDREV+AGVIRIGVIESIVHSWFPDFLGRLH+ FPRLQ Sbjct: 61 GSKALVHAERMVKLMREMKEDMSDREVYAGVIRIGVIESIVHSWFPDFLGRLHKTFPRLQ 120 Query: 121 IEIVSDTTIHLHEQFSKSNLDLVLQAEPVIGPQVSNIALCELPMRWVGSPKLDIGSETLS 180 IEIVSDTTIHLHEQFSK NLDLVLQAE VIGPQVSN+ALCE PMRWVGSPKLDIGSETLS Sbjct: 121 IEIVSDTTIHLHEQFSKGNLDLVLQAEAVIGPQVSNLALCEFPMRWVGSPKLDIGSETLS 180 Query: 181 LADLAAFPIISFARNSGPHAVIERLFSGSERAERTLHINCIASVATMIRLATDGFGITAV 240 LADLAAFPIISFARNSGPHAVIERLFS S+R+ERTLHINCIASVATMIRLATDGFGITAV Sbjct: 181 LADLAAFPIISFARNSGPHAVIERLFSDSQRSERTLHINCIASVATMIRLATDGFGITAV 240 Query: 241 PPAIIQRELNEESLHLLRVDTEFPALVLIACFRSDHENPLTETVARIAQETAADFALNWG 300 PPAIIQRELNEESLHLLRVDTEFPALVLIA FRSDHENPLTETVARIAQETAADFALNWG Sbjct: 241 PPAIIQRELNEESLHLLRVDTEFPALVLIASFRSDHENPLTETVARIAQETAADFALNWG 300 Query: 301 QEIARLPVPLG 311 EIARLP L Sbjct: 301 HEIARLPASLN 311 >gi|300312614|ref|YP_003776706.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 158 bits (400), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 96/292 (32%), Positives = 157/292 (53%), Gaps = 3/292 (1%) Query: 1 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD 60 MN+RF+E F W A L++ AE+LH TQ+ +SSRIASLE++ GV L DR ++ LT Sbjct: 1 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA 60 Query: 61 GSKALVYAERMVKLMREMKDDMSDREVFAGVIRIGVIESIVHSWFPDFLGRLHQAFPRLQ 120 G + A +++ + R+++ ++ +RIG IES+VHSW P +L + +P Sbjct: 61 GQRFQRLAVKLLDMQRQIRQELGGHSAGPLALRIGSIESVVHSWLPAWLQEIRCRYPDFA 120 Query: 121 IEIVSDTTIHLHEQFSKSNLDLVLQAEPVIGPQVSNIALCELPMRWVGSPKLDIGSETLS 180 +E+ +T+ L EQ + DLV + V + + + M +VG + G+ + + Sbjct: 121 LELTVETSPVLTEQIRRGAQDLVFTSTVGSDTAVRSRLMTPMEMVFVGH-RERFGTRSHT 179 Query: 181 LADLAAFPIISFARNSGPHAVIERLFSGSERAERTLHINCIASVATMIRLATDGFGITAV 240 L +LAA +I+F R S PH + +L E I+ I+S++ M++L GFG+ + Sbjct: 180 LEELAAHDLITFQRGSQPHQGLLQLC--QEWGVANPRIHAISSISAMVQLVEGGFGVATL 237 Query: 241 PPAIIQRELNEESLHLLRVDTEFPALVLIACFRSDHENPLTETVARIAQETA 292 P A +++ L +LR + PAL + A +R D + L E V A E A Sbjct: 238 PRASVRQLTRRLPLRILRCQAQLPALQIHASYREDPSSSLAELVLDSALEHA 289 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 85.1 bits (209), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 60/161 (37%), Positives = 81/161 (50%), Gaps = 10/161 (6%) Query: 1 MNIRFLETFVWLARLRNFRL---------TAERLHTTQAAVSSRIASLEQDFGVRLFDRS 51 MN LE + LA L FR AERL+ Q+ V++RI LEQ GV LF R Sbjct: 1 MNPSLLEIDMELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRD 60 Query: 52 AREVALTADGSKALVYAERMVKLMREMKDDMSDREVFAGVIRIGVIESIVHSWFPDFLGR 111 R + LTA G L YAER++ L +E + ++ + G +RIG +ES S P L Sbjct: 61 RRRMVLTAAGEALLDYAERILDLAQEARQAVAPQSP-RGRLRIGSMESAAASRLPGPLAE 119 Query: 112 LHQAFPRLQIEIVSDTTIHLHEQFSKSNLDLVLQAEPVIGP 152 HQ +P +++E+ + T L Q LD L A PV P Sbjct: 120 FHQRWPEVRLELSTAPTDVLMAQVRACKLDAALVAGPVSDP 160 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 83.2 bits (204), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 64/246 (26%), Positives = 108/246 (43%), Gaps = 11/246 (4%) Query: 1 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD 60 ++ R L+ F+ LA R+F A+R H +Q+A S+ I +E G RLF+R R V LT + Sbjct: 5 ISTRLLQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVTLTPE 64 Query: 61 GSKALVYAERMVKLMREMKDDMSDREV-FAGVIRIGVIESIVHSWFPDFLGRLHQAFPRL 119 G + A ++V + DMSD G + I + S+ W P L Q +P + Sbjct: 65 GELFVQVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQRYPGV 124 Query: 120 QIEIVSDTTIHLHEQFSKSNLDLVLQAEPVIGPQV---SNIALCELPMRWVGSPKLDIGS 176 +E+ + + +D+ L A GP + LC P V + S Sbjct: 125 TVELFDAISDQCLDLLRHGKVDIALTAP---GPNLLEFDTRPLCSDPFYLVCRKDHKLAS 181 Query: 177 E-TLSLADLAAFPIISFARNSGPHAVIERLFSGSERAERTLHINCIASVATMIRLATDGF 235 + + + LA +I AR++ ++ + L + +A+VA +I G Sbjct: 182 KRRIKVPQLAGCEMIHLARSTSVRQHLDAVLRPGGVIHTGLEVEHLATVAALIE---SGL 238 Query: 236 GITAVP 241 G++ VP Sbjct: 239 GVSVVP 244 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 75.1 bits (183), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 71/269 (26%), Positives = 113/269 (42%), Gaps = 18/269 (6%) Query: 1 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD 60 M +R L+ F +A +F AE LH Q +S +I LE+ GV L DR++R +ALT Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 61 GSKALVYAERMVKLMREMKDDMSDREVFAGV---IRIGVIESIVHSWFPDFLGRLHQAFP 117 G Y + + L R + + R + G IG + S ++ P+ + R P Sbjct: 61 GK--FFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMP 118 Query: 118 RLQIEIVSDTTIHLHEQFSKSNLDLVLQAEPVIGPQVSNIALCELPMRWV---GSPKLDI 174 ++I T+ E +D+ P+ P + + E P+ V G P L Sbjct: 119 EIEIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLL-- 176 Query: 175 GSETLSLADLAAFPIISFARNSGPHAVIERLFSGSERAERTLHINCIASVATMIRLATDG 234 ++LA LAA I + P + L S RA R + + T I L G Sbjct: 177 ARNKVTLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIGLVAAG 236 Query: 235 FGITAVPPA--------IIQRELNEESLH 255 G+T VP + ++ R L+ + +H Sbjct: 237 VGVTLVPRSVQGLHRSDVVYRPLSNKGVH 265 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.324 0.136 0.397 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 903,828 Number of extensions: 35521 Number of successful extensions: 247 Number of sequences better than 1.0e-08: 38 Number of HSP's gapped: 244 Number of HSP's successfully gapped: 38 Length of query: 311 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 226 Effective length of database: 1,217,395 Effective search space: 275131270 Effective search space used: 275131270 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)